Showing : wgcna • reset
4
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3
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1.0k
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WGCNA documentation not available
WGCNA
written 5 months ago by ▴ 10
5
votes
8
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3.9k
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Problem about picking soft threshold power in WGCNA software
wgcna rnaseq
written 7.2 years ago by ▴ 40
0
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2
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557
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Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 5 months ago by • 0
1
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2
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2.7k
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WGNCA kME vs. kIM
WGCNA
updated 12 months ago by • 0 • written 8.7 years ago by ▴ 30
0
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5
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1.7k
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blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 13 months ago by • 0
11
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5
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7.4k
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Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 28 days ago by • 0 • written 9.1 years ago by ▴ 150
0
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2
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238
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WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
7 weeks ago • updated 6 weeks ago w.cookson • 0
0
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2
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206
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voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
6 weeks ago Gimena • 0
6
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6
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2.7k
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WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 4.1 years ago by ▴ 60
0
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1
reply
527
views
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 6 months ago by ★ 4.1k • written 6 months ago by • 0
0
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1
reply
1.0k
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WGCNA correlation sign differences between eigen genes/ hub genes and clinical traits
hub correlation eigen WGCNA
updated 5 months ago by • 0 • written 2.4 years ago by • 0
2
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5
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1.2k
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DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 29 days ago by • 0 • written 11 months ago by • 0
0
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1
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2.1k
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Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 9 months ago by 65k • written 9 months ago by • 0
0
votes
1
reply
636
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Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 11 months ago by ★ 4.1k • written 11 months ago by ▴ 20
0
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2
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320
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WGCNA less samples
RNA-Seq WGCNA Worms
5 months ago davca • 0
0
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2
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941
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using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 1 day ago by • 0 • written 17 months ago by • 0
1
vote
1
reply
507
views
WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 10 months ago by ★ 4.1k • written 10 months ago by • 0
3
votes
6
replies
858
views
Question on constructing design matrix and defining contrasts for analysis
wgcna DESeq2 edgeR limma design
updated 11 months ago by 50k • written 11 months ago by ▴ 10
0
votes
1
reply
405
views
TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
TOMsimilarityFromExpr WGCNA
updated 8 months ago by ★ 4.1k • written 9 months ago by • 0
0
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1
reply
180
views
problem with ClusterRepro function
WGCNA
updated 9 weeks ago by 65k • written 9 weeks ago by • 0
1
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2
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697
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Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
5 months ago • updated 4 months ago Levi • 0
1
vote
0
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488
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WGCNA of two different cohorts study
DifferentialExpression WGCNA
updated 11 months ago by 42k • written 11 months ago by ▴ 20
0
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1
reply
896
views
WGCNA soft thresholding suggesting a power of 1
independence thresholding WGCNA connectivity scale
updated 10 weeks ago by ▴ 720 • written 15 months ago by • 0
0
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0
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26
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query regarding how to apply WGCNA on replicates
replicatesRNAseq WGCNA
1 day ago k200987 • 0
0
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1
reply
312
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WGCNA | plotDendroAndColors ERROR
plotDendroAndColor WGCNA
updated 3 months ago by ★ 4.1k • written 3 months ago by • 0
0
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2
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824
views
Finding Modules with WGCNA - Collapsing Biological Replicates in Expression Data - Then Finding Eigengenes on Previously Found Modules
WGCNA Module Detection
updated 3 months ago by • 0 • written 4.6 years ago by • 0
0
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0
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436
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules WGCNA consensus
11 months ago Levi • 0
0
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1
reply
1.1k
views
WGCNA Preservation error
preservation WGCNA
updated 3 months ago by • 0 • written 2.4 years ago by • 0
0
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2
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1.3k
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WGCNA: Picking soft threshold before and after batch effect correction for Microbial data
wgcna WGCNA
written 2.1 years ago by • 0
2
votes
1
reply
523
views
WGCNA: many over and under-expressed features in modules of a signed network
WGCNA wgcna_package
updated 11 months ago by ▴ 50 • written 11 months ago by ▴ 10
1
vote
1
reply
424
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
updated 6 months ago by ▴ 190 • written 6 months ago by ▴ 10
31 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0
Thanks a lot!
Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150
Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa by Matthew Thornton ▴ 360
So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
Votes
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?
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